X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 20% (W/V) PEG 3350, 200 MM NABR, 100 MM BIS-TRIS PROPANE PH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.58 α = 90
b = 56.58 β = 90
c = 56.58 γ = 90
Symmetry
Space Group I 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- SLS X10SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.08 18 99.5 0.08 -- -- 4.11 -- 13026 -- 0.0 12.0
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.08 1.15 98.8 0.66 -- 2.01 3.97 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
SAD 1.08 16.33 -- -- -- 12350 657 99.85 -- 0.12938 0.12741 0.16748 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.082 1.11 -- 48 921 0.203 0.258 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.58
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 6.026
r_sphericity_free 8.898
r_rigid_bond_restr 2.924
r_scangle_it 8.82
r_scbond_it 6.889
r_mcangle_it 5.732
r_mcbond_other 3.975
r_mcbond_it 5.237
r_nbd_refined 0.385
r_gen_planes_other 0.003
r_gen_planes_refined 0.008
r_chiral_restr 0.137
r_dihedral_angle_4_deg 11.299
r_dihedral_angle_3_deg 14.385
r_dihedral_angle_2_deg 36.995
r_dihedral_angle_1_deg 4.897
r_angle_other_deg 1.259
r_angle_refined_deg 1.834
r_bond_other_d 0.003
r_bond_refined_d 0.019
r_nbd_other 0.211
r_nbtor_refined 0.184
r_nbtor_other 0.092
r_xyhbond_nbd_refined 0.17
r_symmetry_vdw_refined 0.091
r_symmetry_vdw_other 0.281
r_symmetry_hbond_refined 0.191
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 256
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 70

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
SHELX Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
SHELX model building